Probe:	IMAGE clone 2101448
Probe preparation:	Antisense labelled with digoxigenin RNA
Visualized with:	Alkaline phosphatase
Assay notes:	These specimens were also hybridized with a fluorescein-labeled Shh probe MGI:2110655; detected with TBT/BCIP. The results are reported in Supp. Table 4, whose legend includes a key to the abbreviations used and more fully details the regions examined.

Structure	Level	Pattern	Image	Note
TS19: diencephalon lateral wall mantle layer	Strong	Non-Uniform	Lhx2-Shh E11.5-sagittal , Lhx2-Shh E11.5-coronal	There is strong staining in the MZ of the dorsal thalamus. Staining is either absent or ubiquitous in the MZ of the prethalamus, dorsal & ventral POAs, the PVH, VMH & ARH nuclei, the AVH, anterior & posterior IDs, premam, mam & supramam zones & the TT.
TS19: diencephalon lateral wall ventricular layer	Moderate	Non-Uniform	Lhx2-Shh E11.5-sagittal , Lhx2-Shh E11.5-coronal	Staining is moderate in the VZ of the AVH, VMH nucleus & premam zone, moderate & scattered in dorsal & ventral POAs, PVH & ARH nuclei & anterior ID & either absent or ubiquitous in dorsal thalamus, prethalamus, posterior ID, TT & mam & supramam zones.
TS19: telencephalon mantle layer	Ambiguous		Lhx2-Shh E11.5-coronal , Lhx2-Shh E11.5-sagittal	Staining is either absent or ubiquitous in the postmitotic neurons in the intermediate zone and cortical plate of the cerebral cortex and in the mantle zone of the ganglionic eminences.
TS19: telencephalon ventricular layer	Very strong	Non-Uniform	Lhx2-Shh E11.5-sagittal , Lhx2-Shh E11.5-coronal	There is very strong staining in the ventricular zone of the cerebral cortex and moderate, scattered staining in the ganglionic eminences.

Structure	Level	Pattern	Image	Note
TS20: cerebral cortex intermediate zone	Ambiguous		Lhx2-Shh E12.5-sagittal , Lhx2-Shh E12.5-coronal	Staining is either absent or ubiquitous in the postmitotic neurons in the intermediate zone of the cerebral cortex.
TS20: cerebral cortex ventricular layer	Very strong		Lhx2-Shh E12.5-sagittal , Lhx2-Shh E12.5-coronal	There is very strong staining in the ventricular zone of the cerebral cortex.
TS20: cortical plate	Ambiguous		Lhx2-Shh E12.5-sagittal , Lhx2-Shh E12.5-coronal	Staining is either absent or ubiquitous in the postmitotic neurons in the cortical plate of the cerebral cortex.
TS20: diencephalon mantle layer	Ambiguous		Lhx2-Shh E12.5-coronal , Lhx2-Shh E12.5-sagittal	Staining is either absent or ubiquitous in the mantle zone of the premam, mam and supramam zones and the TT.
TS20: diencephalon ventricular layer	Moderate	Non-Uniform	Lhx2-Shh E12.5-coronal , Lhx2-Shh E12.5-sagittal	There is moderate staining in the ventricular zone of the premam zone. Staining is either absent or ubiquitous in the ventricular zone of the mam and supramam zones and the TT.
TS20: ganglionic eminence	Moderate	Non-Uniform	Lhx2-Shh E12.5-sagittal , Lhx2-Shh E12.5-coronal	There is moderate, scattered staining in the ventricular zone of the ganglionic eminences. Staining is either absent or ubiquitous in the mantle zone of the ganglionic eminences.
TS20: hypothalamus mantle layer	Ambiguous		Lhx2-Shh E12.5-sagittal , Lhx2-Shh E12.5-coronal	Staining is either absent or ubiquitous in the mantle zone of the dorsal and ventral POAs, the PVH, VMH and ARH nuclei, the AVH and anterior and posterior IDs.
TS20: hypothalamus ventricular layer	Moderate	Non-Uniform	Lhx2-Shh E12.5-sagittal , Lhx2-Shh E12.5-coronal	There is moderate staining in the VZ of the AVH and moderate, scattered staining in the dorsal and ventral POAs, anterior ID and VMH and ARH nuclei. Staining is either absent or ubiquitous in the VZ of the PVH nucleus and posterior ID.
TS20: thalamus mantle layer	Ambiguous		Lhx2-Shh E12.5-sagittal , Lhx2-Shh E12.5-coronal	Staining is either absent or ubiquitous in the mantle zone of the dorsal thalamus and prethalamus.
TS20: thalamus ventricular layer	Very strong	Non-Uniform	Lhx2-Shh E12.5-sagittal , Lhx2-Shh E12.5-coronal	There is very strong staining in the ventricular zone of the dorsal thalamus. Staining is either absent or ubiquitous in the ventricular zone of the prethalamus.

Structure	Level	Pattern	Image	Note
TS22: cerebral cortex intermediate zone	Moderate		Lhx2-Shh E14.5-coronal , Lhx2-Shh E14.5-sagittal	There is moderate staining in the postmitotic neurons in the intermediate zone of the cerebral cortex.
TS22: cerebral cortex ventricular layer	Very strong		Lhx2-Shh E14.5-coronal , Lhx2-Shh E14.5-sagittal	There is very strong staining in the ventricular zone of the cerebral cortex.
TS22: cortical plate	Moderate		Lhx2-Shh E14.5-coronal , Lhx2-Shh E14.5-sagittal	There is moderate staining in the postmitotic neurons in the cortical plate of the cerebral cortex.
TS22: diencephalon mantle layer	Ambiguous		Lhx2-Shh E14.5-coronal , Lhx2-Shh E14.5-sagittal	Staining is either absent or ubiquitous in the mantle zone of the premam, mam and supramam zones and the TT.
TS22: diencephalon ventricular layer	Moderate	Non-Uniform	Lhx2-Shh E14.5-coronal , Lhx2-Shh E14.5-sagittal	There is moderate staining in the ventricular zone of the premam zone. Staining is either absent or ubiquitous in the ventricular zone of the mam and supramam zones and the TT.
TS22: ganglionic eminence	Moderate	Non-Uniform	Lhx2-Shh E14.5-sagittal , Lhx2-Shh E14.5-coronal	There is moderate staining in the ventricular zone of the ganglionic eminences. Staining is either absent or ubiquitous in the mantle zone of the ganglionic eminences.
TS22: hypothalamus mantle layer	Weak	Non-Uniform	Lhx2-Shh E14.5-coronal , Lhx2-Shh E14.5-sagittal	There is weak, scattered staining in the mantle zone of the PVH nucleus. Staining is either absent or ubiquitous in the mantle zone of the dorsal and ventral POAs, the VMH and ARH nuclei, the AVH and anterior and posterior IDs.
TS22: hypothalamus ventricular layer	Moderate	Non-Uniform	Lhx2-Shh E14.5-coronal , Lhx2-Shh E14.5-sagittal	There is moderate staining in the VZ of the ventral POA & AVH, moderate, scattered staining in the VMH & ARH nuclei & weak, scattered staining in anterior ID. Staining is either absent or ubiquitous in the VZ of the dorsal POA, PVH nucleus & posterior ID.
TS22: thalamus mantle layer	Very strong	Non-Uniform	Lhx2-Shh E14.5-sagittal , Lhx2-Shh E14.5-coronal	There is very strong staining in the mantle zone of the dorsal thalamus. Staining is either absent or ubiquitous in the mantle zone of the prethalamus.
TS22: thalamus ventricular layer	Very strong	Non-Uniform	Lhx2-Shh E14.5-coronal , Lhx2-Shh E14.5-sagittal	There is very strong staining in the ventricular zone of the dorsal thalamus. Staining is either absent or ubiquitous in the ventricular zone of the prethalamus.

Structure	Level	Pattern	Image	Note
TS24: cerebral cortex intermediate zone	Strong		Lhx2-Shh E16.5-coronal , Lhx2-Shh E16.5-sagittal	There is strong staining in the postmitotic neurons in the intermediate zone of the cerebral cortex.
TS24: cerebral cortex ventricular layer	Very strong		Lhx2-Shh E16.5-coronal , Lhx2-Shh E16.5-sagittal	There is very strong staining in the ventricular zone of the cerebral cortex.
TS24: cortical plate	Strong		Lhx2-Shh E16.5-coronal , Lhx2-Shh E16.5-sagittal	There is strong staining in the postmitotic neurons in the cortical plate of the cerebral cortex.
TS24: diencephalon mantle layer	Ambiguous		Lhx2-Shh E16.5-sagittal , Lhx2-Shh E16.5-coronal	Staining is either absent or ubiquitous in the mantle zone of the premam, mam and supramam zones.
TS24: diencephalon ventricular layer	Weak	Non-Uniform	Lhx2-Shh E16.5-sagittal , Lhx2-Shh E16.5-coronal	There is weak staining in the ventricular zone of the premam zone. Staining is either absent or ubiquitous in the ventricular zone of the mam and supramam zones.
TS24: ganglionic eminence	Moderate	Non-Uniform	Lhx2-Shh E16.5-sagittal , Lhx2-Shh E16.5-coronal	There is moderate staining in the ventricular zone of the ganglionic eminences. Staining is either absent or ubiquitous in the mantle zone of the ganglionic eminences.
TS24: hypothalamus mantle layer	Weak	Non-Uniform	Lhx2-Shh E16.5-sagittal , Lhx2-Shh E16.5-coronal	There is weak staining in the mantle zone of the dorsal and ventral POAs. Staining is either absent or ubiquitous in the mantle zone of the PVH, SCH, DMH, VMH and ARH nuclei, the AVH, the DAH and the PH.
TS24: hypothalamus ventricular layer	Moderate	Non-Uniform	Lhx2-Shh E16.5-coronal , Lhx2-Shh E16.5-sagittal	There is moderate staining in the ventricular zone of the DAH and weak staining in the AVH, SCH, VMH and ARH nuclei. Staining is either absent or ubiquitous in the ventricular zone of the dorsal and ventral POAs, the PVH and DMH nuclei and the PH.
TS24: thalamus mantle layer	Very strong	Non-Uniform	Lhx2-Shh E16.5-sagittal , Lhx2-Shh E16.5-coronal	There is very strong staining in the mantle zone of the dorsal thalamus. Staining is either absent or ubiquitous in the mantle zone of the prethalamus.
TS24: thalamus ventricular layer	Very strong	Non-Uniform	Lhx2-Shh E16.5-sagittal , Lhx2-Shh E16.5-coronal	There is very strong staining in the ventricular zone of the dorsal thalamus. Staining is either absent or ubiquitous in the ventricular zone of the prethalamus.